kuleshov-group / caduceusLinks
Bi-Directional Equivariant Long-Range DNA Sequence Modeling
☆223Updated 7 months ago
Alternatives and similar repositories for caduceus
Users that are interested in caduceus are comparing it to the libraries listed below
Sorting:
- Pretraining infrastructure for multi-hybrid AI model architectures☆199Updated 6 months ago
- Discovering Interpretable Features in Protein Language Models via Sparse Autoencoders☆276Updated 3 months ago
- Implementation of AlphaGenome, Deepmind's updated genomic attention model☆76Updated this week
- Repository for StripedHyena, a state-of-the-art beyond Transformer architecture☆409Updated last year
- Benchmarking DNA Language Models on Biologically Meaningful Tasks☆128Updated last year
- Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…☆86Updated last month
- [NeurIPS 2024] BEACON: Benchmark for Comprehensive RNA Tasks and Language Models☆58Updated last year
- Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena☆753Updated 9 months ago
- 🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨☆462Updated last month
- Inference and numerics for multi-hybrid AI model architectures☆90Updated last month
- Primary RNA sequence model☆42Updated last year
- BioReason: Incentivizing Multimodal Biological Reasoning within a DNA-LLM Model | NeurIPS '25☆358Updated last month
- Benchmarks for classification of genomic sequences☆171Updated 5 months ago
- Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch☆557Updated 6 months ago
- A collection of awesome bio-foundation models, including protein, RNA, DNA, gene, single-cell, and so on.☆285Updated 8 months ago
- BioDiscoveryAgent is an LLM-based AI agent for closed-loop design of genetic perturbation experiments☆96Updated 6 months ago
- ☆45Updated 2 years ago
- Foundation Models for Genomics & Transcriptomics☆812Updated 2 weeks ago
- A repository with exploration into using transformers to predict DNA ↔ transcription factor binding☆88Updated 3 years ago
- GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics☆140Updated 2 months ago
- [NeurIPS 2024] Model Decides How to Tokenize: Adaptive DNA Sequence Tokenization with MxDNA☆22Updated 10 months ago
- AI-Driven Digital Organism (AIDO) is a system of multiscale foundation models for predicting, simulating and programming biology at all l…☆142Updated 4 months ago
- ☆24Updated 7 months ago
- [ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome☆453Updated last month
- Tahoe-x1 is a single cell foundation model designed for gigascale datasets☆131Updated last month
- Nature Methods: RhoFold+, Accurate RNA 3D structure prediction using a language model-based deep learning approach☆206Updated 8 months ago
- Repository for mRNA Paper and CodonBERT publication.☆143Updated last year
- My own attempt at a long context genomics model, leveraging recent advances in long context attention modeling (Flash Attention + other h…☆54Updated 2 years ago
- The Family of Diffusion Protein Language Models (DPLM)☆299Updated 6 months ago
- A Protein Large Language Model for Multi-Task Protein Language Processing☆208Updated 4 months ago